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Wolfram Sander

Publications and source records attributed to Wolfram Sander.

At least 19 recordsLinked to original sources
PubMed2006

Furan-formic acid dimers: an ab initio and matrix isolation study.

The dimers formed by formic acid (FA) and furan are investigated by ab initio methods and matrix isolation spectroscopy. Nine complexes with binding energies between -3.91 and -0.82 kcal/mol (MP2/6-311++G(d,p) + ZPE + BSSE) are identified. Another five weaker bound complexes are localized at lower level of theory only. The binding in the furan-FA dimers can be described in terms of OH...O, C=O...H, HO...H, CH...O, OH...pi, and CH...pi interactions. Therefore, the furan-FA complexes are classified in two types: (1) the dimers where the OH hydrogen of formic acid interacts with the furan molecule and (2) the dimers where the main interactions of FA with the furan molecule are via the less acidic CH hydrogen. Duning's and Pople's triple and double basis sets were used to study the dependence of the geometries and energies of the complexes from the basis set. BSSE (basis set superposition error) counterpoise corrections (CP) were included during the geometry optimizations of all dimers at the MP2/6-31G(d,p) level of theory. Matrix isolation spectroscopy allowed us to record the IR spectrum of aggregates between FA and furan. By comparison of the experimental IR spectrum with calculated IR spectra of a variety of complexes, it was possible to identify the most stable furan-FA dimer as the major product of the aggregation.

Algorithms↗
PubMed2006

Computational study of noncovalent complexes between formamide and formic acid.

The geometries and binding energies of 1:1, 1:2, and 1:4 formic acid-formamide complexes (FA-FMA) are calculated by quantum chemical procedures. Vibrational spectra and intermolecular distances of the most stable FA-FMA dimers as well as the influence of the basis set superposition error (BSSE) on the geometries and energies of the dimers are also discussed. All FA-FMA dimers are optimized at the B3LYP/cc-pVTZ, the MP2/cc-pVDZ, aug-cc-pVDZ, cc-pVTZ, and aug-cc-pVTZ levels of theory to study the influence of the level of theory on the calculated geometries and energies. CCSD(T)/cc-pVTZ single-point calculations at the MP2/aug-cc-pVTZ-optimized geometries were performed as reference for estimating the quality of lower level calculations. These calculations allow us to qualitatively describe the competition between different types of hydrogen-bonding interactions in FA-FMA complexes. FA-FMA dimers are compared to other formamide complexes and to the FA-FMA crystal structure.

Journal Article↗
PubMed2006

Watching hydrogen-bond dynamics in a beta-turn by transient two-dimensional infrared spectroscopy.

X-ray crystallography and nuclear magnetic resonance measurements provide us with atomically resolved structures of an ever-growing number of biomolecules. These static structural snapshots are important to our understanding of biomolecular function, but real biomolecules are dynamic entities that often exploit conformational changes and transient molecular interactions to perform their tasks. Nuclear magnetic resonance methods can follow such structural changes, but only on millisecond timescales under non-equilibrium conditions. Time-resolved X-ray crystallography has recently been used to monitor the photodissociation of CO from myoglobin on a subnanosecond timescale, yet remains challenging to apply more widely. In contrast, two-dimensional infrared spectroscopy, which maps vibrational coupling between molecular groups and hence their relative positions and orientations, is now routinely used to study equilibrium processes on picosecond timescales. Here we show that the extension of this method into the non-equilibrium regime allows us to observe in real time in a short peptide the weakening of an intramolecular hydrogen bond and concomitant opening of a beta-turn. We find that the rate of this process is two orders of magnitude faster than the 'folding speed limit' established for contact formation between protein side chains.

Computer Simulation↗
PubMed2006

Generation and reactivity of the phenyl cation in cryogenic argon matrices: monitoring the reactions with nitrogen and carbon monoxide directly by IR spectroscopy.

The phenyl cation 1 has been prepared by co-deposition of iodobenzene 6 or bromobenzene 7 with a microwave-induced argon plasma and characterized by IR spectroscopy in cryogenic argon matrices. The cation can clearly be identified by its strongest absorption at 3110 cm(-1) that is rapidly bleached upon visible light irradiation. This characteristic band is observed neither in the conventional photochemistry of 6 or 7 nor in discharge experiments with alkyl halides or chlorobenzene. The latter finding is in line with energetic considerations. According to density functional theory (DFT) computations, the strongest absorption of 1 is caused by a C-H stretching vibration that involves almost entirely the ortho-hydrogens. This is confirmed by isotopic labeling experiments. Co-deposition of halobenzene/N2 mixtures leads to a decrease of the 3110 cm(-1) absorption, whereas several new signals are detected in the 2200-2400 cm(-1) range of the IR spectrum. Annealing of a matrix that contains 1 and 1% N2 leads to an increase of a broad band at 2260 cm(-1) that is assigned to the benzenediazonium ion 2. A sharp signal at 2327 cm(-1) that had previously been assigned to the N-N stretching vibration of 2 is due to molecular nitrogen. The mechanism that triggers the IR activity of N2 is not yet understood. Annealing of a matrix that contains 1 and 0.5% CO leads to an increase of a broad band at 2217 cm(-1) that is considerably stronger than the 2260 cm(-1) absorption of 2. This signal is assigned to the C-O stretching vibration of the benzoyl cation 12, in excellent agreement with previous investigations of 12 in superacidic media. Some consequences of the measured frequencies with regard to bonding in 2 and 12 are discussed.

Journal Article↗
PubMed2006

Time-resolved infrared study on the photochemistry of O-fluoroformyl- and O-chlorooxalyl-9-fluorenone oxime: the reactivity of the fluoroformyl radical in acetonitrile solution.

This note describes the photochemistry of O-chlorooxalyl- and O-fluoroformyl-9-fluorenone oxime. The solution photochemistry of both precursors was investigated by time-resolved step/scan FTIR spectroscopy. Experiments on O-chlorooxalyl-9-fluorenone oxime only allowed for detection of CO2 and bleaching of the precursor, indicating predominant N-O cleavage. The chlorocarbonyl radical, ClCO*, was not detected. In contrast, TRIR investigations on fluoroformyl oxime 2 gave evidence for formation of the fluoroformyl radical FCO* (3), which rapidly adds to the solvent acetonitrile, yielding a fluoroformyl-functionalized iminyl radical 4. Its reaction with triplet molecular oxygen, on the other hand, is impeded by an activation enthalpy that has been calculated as deltaH# = 3.2 kcal/mol.

Journal Article↗
PubMed2005

The photochemistry of lipoic acid: photoionization and observation of a triplet excited state of a disulfide.

Under short-wavelength UV irradiation, lipoic acid (LipSS) and its reduced form, dihydrolipoic acid (DHLA), undergo photoionization processes through a bi- or monophotonic pathway. After ionization, the LipSS radical cation (LipSS*+) and radical anion (LipSS*-) are generated. LipSS*- can be converted to equimolar amounts of LipSS and DHLA through second-order decay. Triplet acetone can be quenched by LipSS and DHLA with a rate close to the diffusion-controlled limit. The mechanism was further confirmed by continuous irradiation experiments. When LipSS is directly irradiated with UVA light, the first excited triplet state of LipSS is observed, with a lifetime tau=75 ns. Characteristic reactions include triplet energy transfer to oxygen and beta-carotene and addition to isoprene. The lifetime of triplet LipSS is also shortened by addition of water and methanol.

Acetone↗
PubMed2005

Generation and characterization of the selenocysteinyl radical: direct evidence from time-resolved UV/Vis, electron paramagnetic resonance, and Fourier transform infrared spectroscopy.

The selenocysteinyl radical 1 has been generated for the first time by laser flash photolysis (lambda(exc) = 266 nm) of dimethyl bis(N-tert-butoxycarbonyl)-l-selenocystine 2 and of [(9-fluorenylideneamino)oxycarbonyl]methyl(N-tert-butoxycarbonyl)-l-selenocysteine 3 in acetonitrile and characterized by time-resolved (TR) UV/Vis, Fourier transform infrared (FTIR), and electron paramagnetic spectroscopy in combination with theoretical methods. A detailed product study was conducted using gas chromatography and one- and two-dimensional NMR spectroscopy. In the case of [(9-fluorenylideneamino)oxycarbonyl]methyl(N-tert-butoxycarbonyl)-l-selenocysteine 3, the (9-fluorenylideneamino)oxycarbonyl moiety serves as a photolabile protection group providing a "caged selenocysteinyl radical" suitable for biophysical applications. Cleavage of the diselenide bridge or the selenium-carbonyl bond by irradiation is possible in high quantum yields. Because of the lack of a good IR chromophore in the mid-IR region, the selenocysteinyl radical 1 cannot be monitored directly by TR FTIR spectroscopy. TR UV/Vis spectroscopy revealed the formation of the selenocysteinyl radical 1 from both precursors. The selenocysteinyl radical 1 has a lifetime tau approximately 63 mus and exhibits a strong band located at lambda(max) = 335 nm. Calculated UV absorptions of the selenocysteinyl radical (UB3LYP/6-311G(d,p)) are in good agreement with the experimental results. The use of TR UV/Vis spectroscopy permitted the determination of the decay rates of the selenocysteinyl radical in the presence of two quenchers. The product studies demonstrated the reversible photoreaction of dimethyl bis(N-tert-butoxycarbonyl)-l-selenocystine 2. Products of the photolysis of the "caged selenocysteinyl radical" precursor 3 are dimethyl bis(N-tert-butoxycarbonyl)-l-selenocystine 2, carbon dioxide, and some further smaller fragments. In addition, the photodecomposition of the (9-fluorenylideneamino)oxycarbonyl moiety produced 9-fluorenone-oxime 4, 9-fluoren-imine 5, and 6 and 7 as products of the dimerization of two 9-fluorenoneiminoxy radicals 8.

Electron Spin Resonance Spectroscopy↗
PubMed2005

Aggregation of acetic and propionic acid in argon matrices--a matrix isolation and computational study.

Monomeric acetic acid MA and propionic acid MP were isolated in argon matrices at 10K by using a pulse deposition technique. The dimerization of the monomers was induced by warming the matrices from 10 to 40 K. Under these conditions the diffusion of small trapped molecules is rapid and the dimerization could be monitored directly by IR spectroscopy. Both carboxylic acids form the symmetrical dimers B with two strong C=O...HO hydrogen bridges as the thermodynamically most stable dimers. With acetic acid a less stable dimer AA could be obtained if high concentrations of acetic acid in argon were used during the deposition of the matrix. On annealing this dimer rearranges to the more stable BA. In contrast, propionic acid does not form a corresponding less stable dimer under any experimental condition. These observations are rationalized on the basis of DFT and ab initio calculations.

Acetic Acid↗
PubMed2005

Noncovalent complexes between dimethyl ether and formic acid--an ab initio and matrix isolation study.

The complexes formed by noncovalent interactions between formic acid and dimethyl ether are investigated by ab initio methods and characterized by matrix isolation spectroscopy. Six complexes with binding energies between -2.26 and -7.97 kcal mol(-1) (MP2/cc-pVTZ+zero point vibrational energy+basis set superposition erros) are identified. The two strongest bound complexes are, within a range of 0.3 kcal mol(-1), isoenergetic. The binding in these six dimers can be described in terms of OH...O, C=O...H, C-O...H and CH...O interactions. Matrix isolation spectroscopy allowed to characterize the two strongest bound complexes by their infrared spectra.

Carbon↗
PubMed2004

Generation and photoreactions of 2,4,6-trinitreno-1,3,5-triazine, a septet trinitrene.

We have studied the matrix photolysis of 2,4,6-triazido-1,3,5-triazine (cyanuric triazide, 1). Stepwise generation of the corresponding mononitrene, dinitrene, and trinitrene was observed by matrix IR and electron paramagnetic resonance (EPR) spectroscopy. The generated species were identified by comparison of their matrix IR spectra with density functional theory (DFT) computational results. The generation of 2,4,6-trinitreno-1,3,5-triazine with a septet ground state was confirmed for the first time by matrix EPR spectroscopy. The trinitrene readily decomposed into three NCN molecules upon further photoirradiation. This process was also confirmed by matrix EPR spectroscopy.

Journal Article↗
PubMed2004

3,5-Pyridyne--a heterocyclic meta-benzyne derivative.

3,5-Pyridyne (3) has been generated by flash vacuum pyrolysis of 3,5-diiodopyridine (20) and 3,5-dinitropyridine (21) and characterized by IR spectroscopy in cryogenic argon matrices. The aryne can clearly be distinguished from other side products by its photolability at 254 nm, inducing a rapid ring-opening presumably to (Z)-1-aza-hex-3-ene-1,5-diyne. As byproducts of the pyrolysis, HCN and butadiyne were identified, together with traces of acetylene, cyanoacetylene, (E)-1-aza-hex-3-ene-1,5-diyne, and the 3-iodo-5-pyridyl radical (from 20). Several pathways for rearrangements and fragmentations of 3 and of the parent meta-benzyne (1) have been explored computationally by density functional theory and ab initio quantum chemical methods. The lowest energy decomposition pathway of biradicals 1 and 3 is a ring-opening process accompanied by hydrogen migration, leading to (Z)-hex-3-ene-1,5-diyne [(Z)-10] and (Z)-3-aza-hex-3-ene-1,5-diyne [(Z)-24], respectively. Both reactions require activation energies of 45-50 kcal mol(-1). Mechanisms leading from (Z)-24 or directly from 3 to the experimentally observed byproducts are discussed. Upon replacement of the C(5)H moiety by N in meta-benzyne, high-level calculations predict a modest shortening of the interradical distance by 5-7 pm and a reduction of the singlet-triplet energy splitting by 3 kcal mol(-1), in good agreement with isodesmic equations, according to which the singlet ground state of 3 is destabilized relative to 1 by 3-4 kcal mol(-1). In contrast to 3,5-borabenzyne (2), which is found to be doubly aromatic, nucleus-independent chemical shifts of 3 are almost identical to that of pyridine, indicating the absence of paramagnetic ring current effects that may be associated with "in-plane antiaromaticity". As compared with 1, the overall perturbation caused by the nitrogen atom in 3 is weak, and four electron, three center interaction is of minor importance in this molecule.

Journal Article↗
PubMed2004

Photoinduced interactions between oxidized and reduced lipoic acid and riboflavin (vitamin B2).

As a powerful natural antioxidant, lipoic acid (LipSS) and its reduced form dihydrolipoic acid (DHLA) exert significant antioxidant activities in vivo and in vitro by deactivation of reactive oxygen and nitrogen species (ROS and RNS). In this study the riboflavin (RF, vitamin B2) sensitized UVA and visible-light irradiation of LipSS and DHLA was studied employing continuous irradiation, fluorescence spectroscopy, and laser flash photolysis (LFP). Our results indicate that LipSS and DHLA quench both the singlet state (1RF*) and the triplet state (3RF*) of RF by electron transfer to produce the riboflavin semiquinone radical (RFH.) and the radical cation of LipSS and DHLA, respectively. The radical cation of DHLA is rapidly deprotonated twice to yield a reducing species, the radical anion of LipSS (LipSS.-). When D2O was used as solvent, it was confirmed that the reaction of LipSS with 3RF* consists of a simple electron-transfer step, while loss of hydrogen occurs in the case of DHLA oxidation. Due to the strong absorption of RFH. and the riboflavin ground state, the absorption of the radical cation and the radical anion of LipSS can not be observed directly by LFP. N,N,N',N'-tetramethyl-p-phenylenediamine (TMPD) and N,N,N',N'-tetramethyl benzidine (TMB) were added as probes to the system. In the case of LipSS, the addition resulted in the formation of the radical cation of TMPD or TMB by quenching of the LipSS radical cation. If DHLA is the reducing substrate, no formation of probe radical cation is observed. This confirms that LipSS.- is produced by riboflavin photosensitization, and that there is no oxidizing species produced after DHLA oxidization.

Antioxidants↗
PubMed2004

Matrix isolation infrared and ab initio study of the hydrogen bonding between formic acid and water.

The infrared spectra of the formic acid-water complexes isolated in argon matrices are reported. Both supersonic jet expansion and a conventional effusive source followed by trapping in solid argon at 10K are used to obtain the matrices. The experimental IR spectra are compared to the data obtained from high level ab initio (MP2) and DFT (B3LYP) calculations with 6-311++G(d,p) and aug-cc-pVTZ basis sets. The complex formation results in red shifts in the C=O and O-H stretching vibrations and a blue shift in the C-O stretching vibration of formic acid. The O-H stretching modes of water also exhibit pronounced red shifts. Both the MP2 and B3LYP calculations located three minima corresponding to cyclic HCOOH...H2O complexes with two hydrogen bond interactions. The binding energies are -10.3, -5.1, and -3.5 kcal mol(-1), respectively, for the three complexes at the MP2/ aug-cc-pVTZ level, corrected for the basis set superposition error (BSSE) using the Boys-Bernardi counterpoise scheme. Comparison of the calculated frequencies of the three complexes with the matrix IR spectrum reveals that the lowest energy complex is formed. In addition, a complex of formic acid with two water molecules is observed.

Formates↗
PubMed2003

Dehydrophenylnitrenes: quartet versus doublet states.

The geometries and energies of 4-, 3-, and 2-dehydrophenylnitrenes (3, 4, and 5) are investigated using complete active space self-consistent field (CASSCF), multiconfiguration quasi-degenerate second-order perturbation (MCQDPT), and internally contracted multiconfiguration-reference configuration interaction (MRCI) theories in conjunction with a correlation consistent triple-zeta basis set. 4-Dehydrophenylnitrene 3 has a quartet ground state ((4)A(2)). The adiabatic excitation energies to the (2)A(2), (2)B(2), (2)A(1), and (2)B(1) states are 5, 21, 34, and 62 kcal mol(-1), respectively. The (2)B(2) state has pronounced closed-shell carbene/iminyl radical character, while the lowest-energy (2)B(1) state is a combination of a planar allene and a 2-iminylpropa-1,3-diyl. The MCQDPT treatment overestimates the excitation energy to (2)B(2) significantly as compared to CASSCF and MRCI+Q. Among quartet states, (4)A(2)-3 is the most stable one, while those of 4 and 5 (both (4)A'') are 3 and 1 kcal mol(-1) higher in energy. 5 also has a quartet ground state and a (2)A' ' state 7 kcal mol(-1) higher in energy. On the other hand, the doublet-quartet energy splitting is -6 kcal mol(-1) for 4 in favor of the doublet state ((2)A''). Hence, (2)A''-4 is the most stable dehydrophenylnitrene, 3.5 kcal mol(-1) below (4)A(2) of 3. The geometry of (2)A''-4 shows the characteristic features of through-bond interaction between the in-plane molecular orbitals at N and at C3. The (2)A' state of 4 resembles the (2)A(1) state of 3 and lies 32 kcal mol(-1) above (4)A''-4. The lowest-energy (2)A' state of 5, on the other hand, resembles the (2)B(2) state of 3 and lies 22 kcal mol(-1) above (4)A''-5.

Journal Article↗
PubMed2003

One century of aryne chemistry.

Arynes, which are formally derived from aromatic rings by abstraction of two hydrogen atoms, have been a focus of organic chemistry for 100 years. In contrast to ortho-benzyne, which is mentioned in almost every introductory textbook on organic reaction mechanisms as a reactive intermediate of nucleophilic aromatic substitution, the meta and para isomers were regarded as rather exotic until recently. This situation has changed dramatically with the discovery of the enediyne antibiotics, a promising new class of antitumor drugs, and has aroused the interest of research groups from all branches of chemistry. Nowadays, arynes and related compounds are among the most intensively studied systems in chemistry. However, many aspects of the chemistry of these reactive intermediates are not well understood yet. In this review we outline the historical developement with an emphasis on recent progress in this challenging field of research.

Journal Article↗